PDBsum entry 1j1h

RNA binding protein

PDB id: 1j1h

Contents

Protein chain

123 a.a. *

* Residue conservation analysis

PDB id:

1j1h

Name:

RNA binding protein

Title:

Solution structure of a tmrna-binding protein, smpb, from thermus thermophilus

Structure:

Small protein b. Chain: a. Engineered: yes

Source:

Thermus thermophilus. Organism_taxid: 274. Expressed in: escherichia coli. Expression_system_taxid: 562.

NMR struc:

11 models

Authors:

T.Someya,N.Nameki,H.Hosoi,S.Suzuki,H.Hatanaka,M.Fujii,T.Terada, M.Shirouzu,Y.Inoue,T.Shibata,S.Kuramitsu,S.Yokoyama,G.Kawai,Riken Structural Genomics/proteomics Initiative (Rsgi)

Key ref:

T.Someya et al. (2003). Solution structure of a tmRNA-binding protein, SmpB, from Thermus thermophilus. FEBS Lett, 535, 94. PubMed id: 12560085 DOI: 10.1016/S0014-5793(02)03880-2

Date:

04-Dec-02 Release date: 11-Feb-03

Protein chain

Q8RR57  (SSRP_THET8) -  SsrA-binding protein from Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)

Seq: 144 a.a.

Struc: 123 a.a.

DOI no: 10.1016/S0014-5793(02)03880-2

FEBS Lett 535:94 (2003)

PubMed id: 12560085

Solution structure of a tmRNA-binding protein, SmpB, from Thermus thermophilus.

T.Someya, N.Nameki, H.Hosoi, S.Suzuki, H.Hatanaka, M.Fujii, T.Terada, M.Shirouzu, Y.Inoue, T.Shibata, S.Kuramitsu, S.Yokoyama, G.Kawai.

ABSTRACT

Small protein B (SmpB) is required for trans-translation, binding specifically to tmRNA. We show here the solution structure of SmpB from an extremely thermophilic bacterium, Thermus thermophilus HB8, determined by heteronuclear nuclear magnetic resonance methods. The core of the protein consists of an antiparallel beta-barrel twisted up from eight beta-strands, each end of which is capped with the second or third helix, and the first helix is located beside the barrel. Its C-terminal sequence (20 residues), which is rich in basic residues, shows a poorly structured form, as often seen in isolated ribosomal proteins. The results are discussed in relation to the oligonucleotide binding fold.

Selected figure(s)

Figure 1.
Fig. 1. ^1H–^15N HSQC spectrum of SmpB from T. thermophilus. Resonance assignments from residue 4 to 123 are labeled according to the residue position in the protein sequence, and the side chain NH[2] signals are connected and labeled by residue type and number. Unassigned signals are indicated by solid circles.

Figure 2.
Fig. 2. Solution structures of SmpB from T. thermophilus. a: Stereo view of the final ensemble 10 structures superimposed on ordered regions (residues 8–62 and 79–122). Residues 124–144 are not depicted. b: Ribbon diagrams of the average structure of SmpB. The two views differ by a 90° rotation. The diagrams were created using the MOLMOL program [22].

The above figures are reprinted by permission from the Federation of European Biochemical Societies: FEBS Lett (2003, 535, 94-0) copyright 2003.

Figures were selected by an automated process.